Extended Data Fig. 7: Spatial expression of larva-related genes in the trochophore larvae of mollusc P. yessoensis and annelid U. unicinctus, in comparison to the direct-developing vertebrate D. rerio.

Whole mount in situ hybridization of caveolin, innexin and ATP1B genes (with the highest expression at the trochophore stage) in the mollusc P. yessoensis and the annelid U. unicinctus. In comparison, spatial expression patterns of two ATP1B genes (ATP1B1a, ATP1B2a) are shown for three ontogenetic stages (early/mid/late somitogenesis after gastrulation) of the direct-developing vertebrate D. rerio. The major expression sites of caveolin and innexin genes were at the apical organ and ciliary bands – the major larval features of trochophore. The expression of ATP1B largely corresponds to the forthcoming adult territory in both indirect-developing and direct-developing animals. No signal in the control group using sense probes confirmed the reliability of the positive signals. at, apical tuft; pt, prototroch; sfi, shell field invagination; tt, telotroch; cc, circumpharyngeal connective; vn, ventral nerve cord; 12 S, 12-somite stage; 18 S, 18-somite stage; 24 hpf, 24 hours post fertilization.